Blast2tree 1.0 assists in the identification of DNA sequences from microorganisms by sending automated queries to the NCBI BLAST and GenBank databases.
In response to a sequence query, the BLAST server returns a set of similar sequences; additional information, including sequence origin and bibliographic information is retrieved from GenBank. Results from both queries are aggregated and stored for subsequent analysis. The user can then select a subset of sequences to display in a spreadsheet and include in a multiple sequence alignment and phylogenetic tree. Sequences may be filtered based on name, number of ambiguities, presence of a corresponding peer reviewed publication, length, etc. Intended for use by medical technologists, the software is now part of the daily workflow fro the sequence-based identification of bacteria and fungi in the clinical laboratory.
Other software not available from the University of Washington that works with Blast2tree 1.0:
Clustalw is used to generate sequence alignments and phylogenetic trees.Thompson, J.D., Higgins, D.G. and Goibson, T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alighmnets through sequence weighting, position specific gap penalties and weight matrix choice. Nucl. Acids Res. 22:4673-4680.
ReportLab Toolkit python package is used to generate pdf output.
blast2tree is one of the many software programs and tools created at the University of Washington available through our Express Licensing Program. These agreements have standard terms and conditions that allow for rapid licensing by companies, organizations, or individuals.
This software is royalty-free to academic end-users based on a UW Free Fork license.License
For licensing information for users at commercial companies, contact the Express Licensing Program.